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consent: Instructions file for GitHub Copilot

.github/copilot-instructions.md

consent copilot-instructions.md is an instructions file for GitHub Copilot from DataBiosphere/consent. It costs 455 tokens per session, scanned A, original, BSD-3-Clause.

Repository instructions for developing Consent, a software project built with Dropwizard, Guice, and JDBI. They define its code structure, authentication rules, API compatibility requirements, formatting, performance, and testing expectations.

In plain words
What is it for?
Use them when implementing features, changing API routes, reviewing code, updating API documentation, or working with large database-backed results in the Consent repository.
Why use it?
They help coding agents make changes that fit the existing architecture and avoid breaking authentication, public APIs, database access, or quality checks.

Instructions file for GitHub Copilot

Written for GitHub Copilot: a Copilot instructions file.

This is DataBiosphere/consent's own configuration. It tells GitHub Copilot how to work on consent itself, so it is not a mod to install elsewhere. Copy it as a starting point and replace the rules that are about this project. Everything consent configures →

not rated 11repo changed 22d ago A scan 455 tokens original BSD-3-Clause
View source ↗ DataBiosphere/consent duos.broadinstitute.org
Reuse

Borrowing it

Nothing to install: this file belongs to DataBiosphere/consent. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.

Copy the file
curl -O https://raw.githubusercontent.com/DataBiosphere/consent/develop/.github/copilot-instructions.md
Clone the repo
git clone --depth 1 https://github.com/DataBiosphere/consent

Made for: GitHub Copilot.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

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README.md
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Your own site
<a href="https://agentmods.dev/instructions/databiosphere/consent/copilot-instructions"><img src="https://agentmods.dev/badge/instructions/databiosphere/consent/copilot-instructions/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

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Your own site · 80×15
<a href="https://agentmods.dev/instructions/databiosphere/consent/copilot-instructions"><img src="https://agentmods.dev/badge/instructions/databiosphere/consent/copilot-instructions.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 455 This file is loaded in full into every session.
When invoked 455 The same file — it is already loaded in full.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00455 $0.00455
Opus 5.5 $0.00182 $0.00182
Sonnet 5.5 $0.00091 $0.00091
Haiku 4.5 $0.00046 $0.00046

Measured 22d ago against content hash 124825f84212, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

consent copilot-instructions.md scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 22d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

.github/copilot-instructions.md · 45 lines

How it starts

The opening of the file, as written. The whole thing — 45 lines — stays where its author put it; the contents beside it link to each section on GitHub.

These instructions apply to code suggestions and PR review in this repository.

Architecture and Boundaries

  • Keep the existing Dropwizard + Guice + JDBI architecture.
  • Preserve Resource -> Service -> DAO separation.
  • Prefer incremental changes to broad rewrites.
  • Reuse existing auth and error handling patterns (@RolesAllowed, Resource.createExceptionResponse, org.broadinstitute.consent.http.mappers ExceptionMappers).

API and Auth Rules

  • Auth boundary is route-based:
    • Paths under /api are authenticated through the proxy Auth section and include OAUTH-decorated request information.
    • Non-/api paths are unauthenticated and must not assume OAUTH context.
  • Put authenticated endpoints under /api.
  • Keep public API behavior backward compatible unless explicitly approved.
  • If API contracts change, update OpenAPI spec in src/main/resources/assets/api-docs.yaml.

Quality and Performance Expectations

  • Run Spotless formatting for changed files.
  • Resolve SonarQube issues in touched code; do not introduce new blocker/critical issues.
  • For large DB-backed results, prefer pagination/streaming/projections and avoid unbounded in-memory collections.
  • For PostgreSQL DAO queries that span multiple datasets or act on multiple tables, prefer CTEs (WITH) when they simplify logic and reduce repeated work.
  • Favor Java records for new immutable DTO/view models when framework/persistence mapping allows.

Testing and Test Data

  • Add or update tests for behavior changes in src/test/java.
  • Use synthetic test data only; do not include real or realistic PII, tokens, or secrets.
  • Do not use Mockito lenient stubbing (lenient()); prefer strict stubbing and remove unused/mismatched stubs.

Source of Truth

  • docs/API_GUIDELINES.md
  • docs/ARCHITECTURE.md
  • docs/ONBOARDING.md
  • docs/ai/prompts/
  • docs/ai/dar-lifecycle.md (review any change to DARs, progress reports, closeouts, elections, votes or grant queries against it)
  • CONTRIBUTING.md

Read the full file on GitHub · 45 lines

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 22d ago Changed · +2 lines · +35 tokens per session 124825f84212
  2. 2mo ago First seen · 43 lines · 420 tokens per session scan A 4a4a3a303044

Subscribe to this mod's changes

consent copilot-instructions.md is an instructions file published in the GitHub repository DataBiosphere/consent (11 stars, last pushed yesterday), licensed BSD-3-Clause. It adds 455 tokens to every session, about $0.0018 per session on Opus 5.5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

Related

consent copilot-instructions.md compared with instructions from other repositories

consent copilot-instructions.md next to 6 instructions from other repositories
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